Denis Bauer

Dr. Denis Bauer leads the Transformational Bioinformatics team at Australia’s national science agency, the Commonwealth Scientific and Industrial Research Organisation (CSIRO)—the research institution behind fast WiFi, the Hendra virus vaccine, and polymer banknotes. She is also involved in initiatives to bring genomics into medical practice. Denis holds a PhD in bioinformatics with expertise in machine learning and genomics.

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All Sessions by Denis Bauer

Continuous Delivery and DevOps Day

March 9th, 2018

12:30

Going Server-less for Web-Services that need to Crunch Large Volumes of Data

12:30 - 13:15

Real-time analysis through cloud-based solutions is expected in every domain, including life sciences. However, keeping runtime to real-time and constant can be challenging for problems that vary in their complexity such as genome engineering. Here, the whole genome needs to be analyzed for every potential modification spot, hence the computational complexity of finding the optima spot can vary by orders of magnitude. Using AWS Lambda we break down this task into smaller sub-tasks that can be solved in parallel by instantaneously recruiting additional Lambda functions as the complexity increases. The resulting web-tool, GT-Scan2 was featured on the prestigious AWS Jeff Barr blog as it brings together novel scientific insights and unprecedented cloud-compute capacity. This same idea has been used for building CryptoBreeder.
In this presentation, we will discuss the general template for serverless web-application and discuss bespoke solutions for overcoming technical limitations server-less imposes.

Continuous Delivery and DevOps

Where

Ball Room 2

Digital Transformation Day

March 8th, 2018

13:30

How Novel Compute Technology Transforms Life Science Research

13:30 - 14:15

Dr.Bauer and her team have been working to build genome-scale data pipelines that address the computational challenges and limits present in today’s cancer genomic (bioinformatics) data workflows.
Dr. Bauer and her team have built solutions which use modern architectures, such as serverless (AWS Lambda) and also customised machine learning on Apache Spark. AWS Community Hero. The CSIRO team is pushing solutions at the cutting edge of bioinformatics research which best utilizes advances in cloud technologies.
In this demo-filled session, Dr.Denis will discuss and demonstrate some of the work they’ve done in the bioinformatics research.